Growth algorithm for finding low energy configurations of simple lattice proteins

doi:10.1103/PhysRevE.72.016704

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	Growth algorithm for finding low energy configurations of simple lattice proteins
	Huang, WQ ; Lu, ZP ; Shi, H
	2005-07-01
发表期刊	PHYSICAL REVIEW E
ISSN	1539-3755
卷号	72 期号:1 页码:6
摘要	PERM and its new variant nPERMis have been developed to optimize the energy function of protein folding based on HP simple lattice model and were found to outperform all other previous fully blind general purpose algorithms. Using the concept of core-guiding and life-forecasting, we propose a new version of nPERMis, called nPERMh. A major difference with respect to nPERMis is that criteria for further growth of new residue are based on the species of current growing monomer and its position in the HP sequence. Seventeen sequences of length ranging from 46 to 124 residues were tested by nPERMh on the cubic lattice and our algorithm proved very efficient. It should be pointed out that our new version of nPERMis is exclusively designed for conformational search. We hope that similar methods will ultimately be useful for finding native states of more realistic protein models.
DOI	10.1103/PhysRevE.72.016704
语种	英语
WOS研究方向	Physics
WOS类目	Physics, Fluids & Plasmas ; Physics, Mathematical
WOS记录号	WOS:000230887100109
出版者	AMERICAN PHYSICAL SOC
引用统计
文献类型	期刊论文
条目标识符	http://ir.amss.ac.cn/handle/2S8OKBNM/2052
专题	中国科学院数学与系统科学研究院
通讯作者	Huang, WQ
作者单位	1.Huazhong Univ Sci & Technol, Sch Comp Sci & Technol, Wuhan 430074, Hubei Prov, Peoples R China 2.Chinese Acad Sci, Acad Math & Syst Sci, Beijing 100080, Peoples R China
推荐引用方式 GB/T 7714	Huang, WQ,Lu, ZP,Shi, H. Growth algorithm for finding low energy configurations of simple lattice proteins[J]. PHYSICAL REVIEW E,2005,72(1):6.
APA	Huang, WQ,Lu, ZP,&Shi, H.(2005).Growth algorithm for finding low energy configurations of simple lattice proteins.PHYSICAL REVIEW E,72(1),6.
MLA	Huang, WQ,et al."Growth algorithm for finding low energy configurations of simple lattice proteins".PHYSICAL REVIEW E 72.1(2005):6.